In silico restriction map and PFGE

Restriction Enzyme: ApaI
Recognition sequence: G_GGCC'C
Genera: Mycoplasma

Results are not available when the number of fragments is over 50.
Place cursor over bands to show the genome.



 
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No. Bands





(2)

(0)



















(9)





(2)





(2)







(4)





(2)

(0)





(2)









(4)





(2)

(1)

(1)

(1)

(1)

(1)

(1)

(1)

(1)

(0)

(0)

(1)

(1)

(1)

(0)







(3)







(3)







(3)







(3)







(3)





























(15)



















(9)















(8)







(3)


























(15)




























(15)


































(20)





























(18)
























(13)


























(20)

(0)

(0)

(0)

(0)

(0)

(1)

(1)





(2)




(2)

(1)

(1)














(7)













(7)

(1)

























(15)



























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(6)





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(3)














(7)
Compute Dice distance and UPGMA clustering
When comparing band patterns in gels, one alternative is: 1) to assign value 1 to the presence of bands and to assign value 0 to their absence; 2) to compare data from each sample (to compute Dice distances); and 3) to perform UPGMA clustering. By clicking below, the process above will be applied.

Be aware that the comparison performed by this service is theoretical and it allows discerning bands that are just one base different. In contrast, those tiny differences cannot be detected in wet lab experiments.


Show distances
Show cluster as text

Compute Pearson distance and UPGMA clustering
When comparing bands patterns in gels, one alternative is: 1) to determinate an array of data for each line composed of the position in the gel (distance) and color in that position; 2) to compare the previous arrays (to compute Pearson's distances); and 3) to perform UPGMA clustering. By clicking below, the process above will be applied.

Be aware that the comparison performed by this service is theoretical and it allows discerning bands that are just one base different. In contrast, those tiny differences cannot be detected in wet lab experiments.


Show distances
Show cluster as text


Show bands
1234567891011121314151617181920212223242526272829303132333435363738394041424344454647484950515253545556575859606162636465
(2)
992420
14282
(0)
NA
(9)
225527
123940
100900
86013
73269
67467
65610
44731
32996
(2)
801288
190414
(2)
767557
180564
(4)
538322
303532
158312
3238
(2)
848462
161561
(0)
NA
(2)
711445
222934
(4)
513232
249947
128846
106098
(2)
915005
62519
(1)
NA
(1)
NA
(1)
NA
(1)
NA
(1)
NA
(1)
NA
(1)
NA
(1)
NA
(0)
NA
(0)
NA
(1)
NA
(1)
NA
(1)
NA
(0)
NA
(3)
495905
65637
18534
(3)
495517
65503
18538
(3)
495822
65621
18534
(3)
495344
65626
18534
(3)
495645
65617
18534
(15)
171043
137335
129586
78181
65550
64300
57281
53834
48930
35164
23716
22273
16316
12946
3537
(9)
353973
308375
132380
127036
87581
69079
33179
27947
16387
(8)
614667
268800
80779
65838
61320
33190
18574
4091
(3)
327368
291431
46646
(15)
370467
219944
80361
39686
34128
31737
30757
30475
25401
21090
16132
13866
11116
323
93
(15)
243536
221132
125071
80375
40001
32224
30759
30492
29809
25396
21078
16138
13865
11124
93
(20)
190702
171715
130492
88944
84329
33336
30757
26122
25388
22539
18912
12219
11713
11579
11121
10623
9680
2154
340
93
(18)
262530
150105
146090
84198
56224
50072
30727
18897
18214
17426
16152
13865
11621
11127
7960
2817
361
109
(13)
228142
148055
131040
90401
68405
64558
49543
49303
30020
25390
21040
13875
307
(20)
257310
137290
130376
92846
84279
40288
30731
30620
27345
16177
11712
11129
8604
6911
3663
2259
2154
1985
1350
376
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(0)
NA
(1)
NA
(1)
NA
(2)
709604
67475
(2)
1069392
84606
(1)
NA
(1)
NA
(7)
217351
136389
117002
115301
51410
49307
15751
(7)
180985
148572
96790
92291
27785
10643
7329
(1)
NA
(15)
247026
119354
110296
81645
55776
51667
33694
26093
17890
17251
17052
16817
12267
7100
2466
(15)
190986
125238
106867
81618
56062
54297
51697
33684
28367
17875
17251
17052
16815
12267
7100
(14)
200989
190860
106859
56057
54249
51675
33684
28355
17876
17250
17051
16815
12268
7100
(15)
247016
119354
110298
81644
55766
51669
33693
26092
17890
17250
17052
16816
12267
7100
2466
(6)
493430
139183
132435
85248
70822
42761
(2)
822083
10520
(3)
436389
413092
10515
(2)
579373
129897
(3)
590671
135279
16481
(3)
711859
84154
3463
(7)
258542
116543
96131
75938
60678
21257
21139
All data are shown as number of nucleotides.
NA: simulation is not available


1. Mycoplasma agalactiae
2. Mycoplasma agalactiae PG2
3. Mycoplasma arthritidis 158L3-1
4. Mycoplasma bovis HB0801
5. Mycoplasma bovis Hubei-1
6. Mycoplasma bovis PG45
7. Mycoplasma capricolum subsp. capricolum ATCC 27343
8. Mycoplasma conjunctivae
9. Mycoplasma crocodyli MP145
10. Mycoplasma cynos C142
11. Mycoplasma fermentans JER
12. Mycoplasma fermentans M64
13. Mycoplasma fermentans PG18 DNA, nearly
14. Mycoplasma gallisepticum CA06_2006.052-5-2P
15. Mycoplasma gallisepticum NC06_2006.080-5-2P
16. Mycoplasma gallisepticum NC08_2008.031-4-3P
17. Mycoplasma gallisepticum NC95_13295-2-2P
18. Mycoplasma gallisepticum NC96_1596-4-2P
19. Mycoplasma gallisepticum NY01_2001.047-5-1P
20. Mycoplasma gallisepticum R
21. Mycoplasma gallisepticum S6
22. Mycoplasma gallisepticum VA94_7994-1-7P
23. Mycoplasma gallisepticum WI01_2001.043-13-2P
24. Mycoplasma gallisepticum str. F
25. Mycoplasma gallisepticum str. R(high)
26. Mycoplasma genitalium
27. Mycoplasma genitalium M2288
28. Mycoplasma genitalium M2321
29. Mycoplasma genitalium M6282
30. Mycoplasma genitalium M6320
31. Mycoplasma haemocanis str. Illinois
32. Mycoplasma haemofelis Ohio2
33. Mycoplasma haemofelis str. Langford 1
34. Mycoplasma hominis ATCC 23114
35. Mycoplasma hyopneumoniae 168
36. Mycoplasma hyopneumoniae 168-L
37. Mycoplasma hyopneumoniae 232
38. Mycoplasma hyopneumoniae 7422
39. Mycoplasma hyopneumoniae 7448
40. Mycoplasma hyopneumoniae J
41. Mycoplasma hyorhinis DBS 1050
42. Mycoplasma hyorhinis GDL-1
43. Mycoplasma hyorhinis HUB-1
44. Mycoplasma hyorhinis MCLD
45. Mycoplasma hyorhinis SK76
46. Mycoplasma leachii 99/014/6
47. Mycoplasma leachii PG50
48. Mycoplasma mobile 163K
49. Mycoplasma mycoides subsp. capri LC str. 95010
50. Mycoplasma mycoides subsp. mycoides SC
51. Mycoplasma mycoides subsp. mycoides SC str. Gladysdale MU clone SC5
52. Mycoplasma ovis str. Michigan
53. Mycoplasma parvum str. Indiana
54. Mycoplasma penetrans HF-2
55. Mycoplasma pneumoniae
56. Mycoplasma pneumoniae 309
57. Mycoplasma pneumoniae FH
58. Mycoplasma pneumoniae M129-B7
59. Mycoplasma pulmonis
60. Mycoplasma putrefaciens KS1
61. Mycoplasma putrefaciens Mput9231
62. Mycoplasma suis KI_3806
63. Mycoplasma suis str. Illinois
64. Mycoplasma synoviae 53
65. Mycoplasma wenyonii str. Massachusetts